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SCRT1 scratch family transcriptional repressor 1 [ Homo sapiens (human) ]

Gene ID: 83482, updated on 5-Mar-2024

Summary

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Official Symbol
SCRT1provided by HGNC
Official Full Name
scratch family transcriptional repressor 1provided by HGNC
Primary source
HGNC:HGNC:15950
See related
Ensembl:ENSG00000261678 MIM:605858; AllianceGenome:HGNC:15950
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SCRT; ZNF898
Summary
This gene encodes a C2H2-type zinc finger transcriptional repressor that binds to E-box motifs. The encoded protein may promote neural differention and may be involved in cancers with neuroendocrine features. [provided by RefSeq, Jul 2013]
Expression
Biased expression in brain (RPKM 4.1), adrenal (RPKM 0.6) and 1 other tissue See more
Orthologs
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Genomic context

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See SCRT1 in Genome Data Viewer
Location:
8q24.3
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (144330565..144336482, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (145499200..145505117, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (145554228..145560144, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene heat shock transcription factor 1 Neighboring gene uncharacterized LOC124902050 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28092 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28093 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145543593-145544435 Neighboring gene diacylglycerol O-acyltransferase 1 Neighboring gene microRNA 6848 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28094 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19672 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19673 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145555531-145556238 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:145556239-145556947 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:145556948-145557655 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145558559-145559174 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:145559298-145559484 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:145566939-145567080 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19675 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145579988-145580524 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19676 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19677 Neighboring gene transmembrane protein 249 Neighboring gene F-box and leucine rich repeat protein 6

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Scrt1, a transcriptional regulator of β-cell proliferation identified by differential chromatin accessibility during islet maturation. Sobel J, et al. Sci Rep, 2021 Apr 22. PMID 33888791, Free PMC Article
  2. SCRT1 is a novel beta cell transcription factor with insulin regulatory properties. Chriett S, et al. Mol Cell Endocrinol, 2021 Feb 5. PMID 33309639
  3. The SNAIL family member SCRATCH1 is not expressed in human tumors. Bastid J, et al. Oncol Rep, 2010 Feb. PMID 20043117
  4. Mammalian Scratch participates in neuronal differentiation in P19 embryonal carcinoma cells. Nakakura EK, et al. Brain Res Mol Brain Res, 2001 Nov 1. PMID 11687288
  5. Long non-coding RNA TCL6 induced by SCRT1 promotes proliferation and metastasis of non-small cell lung cancer through PDK1/AKT signaling. Chen Y, et al. Pathol Res Pract, 2023 Jun. PMID 37141697

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Long non-coding RNA TCL6 induced by SCRT1 promotes proliferation and metastasis of non-small cell lung cancer through PDK1/AKT signaling.
    Title: Long non-coding RNA TCL6 induced by SCRT1 promotes proliferation and metastasis of non-small cell lung cancer through PDK1/AKT signaling.
  2. Scrt1, a transcriptional regulator of beta-cell proliferation identified by differential chromatin accessibility during islet maturation.
    Title: Scrt1, a transcriptional regulator of β-cell proliferation identified by differential chromatin accessibility during islet maturation.
  3. SCRT1 is a novel beta cell transcription factor with insulin regulatory properties.
    Title: SCRT1 is a novel beta cell transcription factor with insulin regulatory properties.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp547F072

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor activity NAS
Non-traceable Author Statement
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of DNA-templated transcription TAS
Traceable Author Statement
more info
 PubMed 
involved_in regulation of neuron migration IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nuclear body IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
transcriptional repressor scratch 1
Names
scratch family zinc finger 1
scratch homolog 1, zinc finger protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_031309.6 → NP_112599.2  transcriptional repressor scratch 1

    See identical proteins and their annotated locations for NP_112599.2

    Status: REVIEWED

    Source sequence(s)
    AC233992
    Consensus CDS
    CCDS6421.1
    UniProtKB/Swiss-Prot
    A8MX66, Q96C52, Q9BWW7
    Related
    ENSP00000455711.1, ENST00000569446.3
    Conserved Domains (2) summary
    COG5048
    Location:245 → 313
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:250 → 270
    ZF_C2H2; C2H2 Zn finger [structural motif]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    144330565..144336482 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024447291.2 → XP_024303059.1  transcriptional repressor scratch 1 isoform X1

    Conserved Domains (2) summary
    COG5048
    Location:178 → 246
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:183 → 203
    ZF_C2H2; C2H2 Zn finger [structural motif]

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_018654716.1 Reference GRCh38.p14 PATCHES

    Range
    61168..67085 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054332210.1 → XP_054188185.1  transcriptional repressor scratch 1 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    145499200..145505117 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054361323.1 → XP_054217298.1  transcriptional repressor scratch 1 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BWW7.2 GenPept UniProtKB/Swiss-Prot:Q9BWW7

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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